The column was maintained at 65 C, and samples were eluted with 1. 6 mM H2SO4 at 0. 6 ml min isocratic flow. A standard curve was constructed for each detected chemical and metabolic conversion product for HPLC assays as described previously. Microarray design and fabrication Bioactive compound Genome microarray of S. cerevisiae was fabricated with a version of 70 mer oligo set representing 6,388 genes. Using OminGrid 300 Gene Machine, a mini array consisting of quality control genes was designed on the top of the target array for data acquisition reference during pre scanning. Replicated universal RNA controls were embedded in the target array with 32 replications for each control gene and other quality controls of DNA sequence back ground and slide background were included. The target genome array was printed in duplicate on a slide.

Each microarray slide consisted of approximately 13,000 ele ments including target genes and quality controls. RNA isolation, probe, labeling, and hybridization Total RNA was isolated and purified using RNeasy Mini Kit using a protocol as previously described. RNA integrity was verified by gel electrophoresis and NanoDrop Spectrophotometer ND 100. RNA probe, together with incorporated RNA controls, was labeled using an indirect dUTP Cy3 or Cy5 dye as described previously. Cy5 labeled RNA at 0 time point was designated as a reference and Cy3 was used to label test samples. An equal amount of at least 30 pmol Cy3 and Cy5 labeling reaction was applied for hybridization. Hybri dization was performed based on Hegde et al with modifications using HS 4800 Hybridization sta tion.

Data acquisition and analysis Microarray slides were scanned using a GenePix 4000B scanner and data acquisition was performed applying universal RNA controls using GenPix Pro V 6. 0 software. A pre scan con trol mini array was used to adjust PMT Gain against Cy3 and Cy5 channels and the ratios of signal intensi ties between Cy3 and Cy5 were balanced to 1. 0 using the calibration control as described previously. Each spot was individually examined and adjusted or flagged out if necessary. Microarray data was deposited at the Gene Expression Omnibus database under Accession GSE22939. Median of foreground signal intensity subtracted by background for each dye channel was used for analysis. Raw data for each slide were normalized based on spike in control gene CAB, and normalized data were analyzed using GeneSpring GX 10.

0. Briefly, expression values less than 100 in 7 of 16 sam ples were filtered out from probesets, then a 2 way ANOVA analysis was performed. Genes showing statistically significant differential expressions with a minimum of 2 fold changes were selected for Principal Component Analysis and clustering analysis Anacetrapib by Hierarchical and Self Organizing Maps. Interaction pathway analyses were modified and incorporated with the most up to date information.